Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1382 |
| PDBID: | 5GXB |
| Chains: | B_A |
| Organism: | Escherichia coli K-12, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 3.30 |
| Reference: | 10.1073/pnas.1615414113 |
| Antibody | |
| Antibody: | LacY Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Lactose permease |
| Antigen mutation: | No |
| Durg Target: | P02920 |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >5GXB_B|Chain B|nanobody|Vicugna pacos (30538) MQVQLVESGGRLVQAGDSLRLSCAASGRTFTTYLMGWFRQAPGKEREFVAAIRWSGGSTYYADSVKGRFTISRDNAKNTVYLQMNSLKLEDTAVYYCAAAARPSYSGDYGYTEALRYDYWGQGTQVTVSSHHHHHHEPEA |
Antigen
Chain: A
Mutation: NULL
| >5GXB_A|Chain A|Lactose permease|Escherichia coli (strain K12) (83333) MYYLKNTNFWMFGLFFFFYFFIMGAYFPFFPIWLHDINHISKSDTWIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMFGCVGWALCASIVGIMFTINNQFVFWLGSGCALILAVLLFFAKTDAPSSATVANAVGANHSAFSLKLALELFRQPKLWFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVFWYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSGPGPLSLLRRQVNEVAHHHHHH |
Interaction
1、Solvent accessible surface areas (SASA) were calculated (Naccess V2.1.1) for each residue in antibody and antigen, respectively. The residues with SASA loss in binding of more than 1Å2 were classified as interacting residues.
Interacting residues (ΔSASA based)
| B: MET0 PHE29 THR30 TYR32 LEU33 ARG52 SER54 GLY55 SER57 TYR59 ALA100 ARG101 PRO102 SER103 TYR104 SER105 GLY106 ASP107 TYR108 GLY109 TYR110 THR111 GLU112 ARG115 A: PRO31 HIS35 LYS42 THR45 TRP46 PHE49 GLN242 ALA244 ASN245 PHE246 THR248 SER249 PHE250 PHE251 ALA252 THR253 GLY254 GLU255 THR258 PHE308 ALA309 THR310 TYR373 GLU374 SER375 ILE376 GLY377 PHE378 GLN379 GLY380 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 5Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 5 Å from any atom.
Interacting residues (Atom distance based)
